Origin IGS: tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcgcaatataattcccattaaaggcaggattttttaatcttgtctttaattgtttttaacacacaacaaatctccttttgccttaaaatagtttgtcgttatcatttatttttgctttctttgcagaaaataaattgctaaaca Mask Tandem Repeat Region ================================================ tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Find is-nt database================================================ Query_seq: PI1130:PI1131|PI1130:PI1131:probable glucose/galactose transporter:folylpolyglutamate synthase:->->:1057117..1057263 147 tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1130:PI1131|PI1130:PI1131:probable glucose/galactose transporter:folylpolyglutamate synthase:->->:1057117..1057263 147 tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1130:PI1131|PI1130:PI1131:probable glucose/galactose transporter:folylpolyglutamate synthase:->->:1057117..1057263 147 tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 7 End: 108 ...... C N I K Q L S L L F L H Y R C V I K L C F S I Q Q T N F V I L S L M ....................................... tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1130:PI1131|PI1130:PI1131:probable glucose/galactose transporter:folylpolyglutamate synthase:->->:1057117..1057263 147 tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Intra-Species Hit: Count: 1 Min: 1 Max: 147 Len: 147 Subject: pint_PI1130_PI1131|probable glucose/galactose transporter:folylpolyglutamate synthase|POSITIVE:POSITIVE|[1057117,1057263]|147 HSP 1 e-value: 3.0E-78 bit: 291.0 Len: 147 Query Start:1 Query End:147 Subject Strand: POSITIVE Subject Start: 1 Subject End: 147 tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta tgtttagcaatttattttctgcaaagaaagcaaaaataaatgataacgacaaactattttaaggcaaaaggagatttgttgtgtgttaaaaacaattaaagacaagattaaaaaatcctgcctttaatgggaattatattgcgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUAGCAAUUUAUUUUCUGCAAAGAAAGCAAAAAUAAAUGAUAACGACAAACUAUUUUAAGGCAAAAGGAGAUUUGUUGUGUGUUAAAAACAAUUAAAGACAAGAUUAAAAAAUCCUGCCUUUAAUGGGAAUUAUAUUGCGAUUA ......(((((..(((..(.((.......)).........(((((((((((((((.((((......)))).)).)))))))).)))))......(((((((.((.((((....)))).)).))))))))..)))...)))))..... (-26.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGCAAUAUAAUUCCCAUUAAAGGCAGGAUUUUUUAAUCUUGUCUUUAAUUGUUUUUAACACACAACAAAUCUCCUUUUGCCUUAAAAUAGUUUGUCGUUAUCAUUUAUUUUUGCUUUCUUUGCAGAAAAUAAAUUGCUAAACA .....(((((.........(((((((((((((((....)))))))))))))))............((.(((((.((..(((......)))..))))))).)).........(((((((.......)))))))....)))))...... (-28.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 236 88 61 57 26 pint:PI0180|5end_TonB_protein_171905..172135_POSITIVE 218 87 46 108 70 pint:PI2038|5end_conserved_hypothetical_protein;_possible_internalin-related_protein_1990463..1990693_POSITIVE 208 40 1 207 166 pint:PI1482|5end_hypothetical_protein_1404179..1404409_POSITIVE 208 40 1 64 23 pint:PI1481|5end_hypothetical_protein_1404036..1404266_POSITIVE 205 83 46 186 151 pint:PI1133|5end_GrpE_protein_1059662..1059892_POSITIVE 191 140 118 87 66 pint:PI1778|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1710009..1710239_POSITIVE 191 35 6 91 69 pint:PI1062|5end_TPR_repeat_protein_980020..980250_POSITIVE 188 63 25 95 56 pint:PI0993|5end_probable_TPR-repeat-containing_protein_917175..917405_POSITIVE 185 85 52 137 93 pint:PI2079|5end_conserved_hypothetical_protein;_possible_ATPase_2036715..2036945_POSITIVE 185 51 19 99 67 pint:PI1932|5end_glycogen_synthase_1878080..1878310_POSITIVE 185 106 63 64 20 pint:PI1522|5end_thioredoxin_M_1441646..1441876_POSITIVE 184 105 61 96 49 pint:PI1188|5end_hypothetical_protein_1108639..1108869_POSITIVE 184 89 47 189 145 pint:PI1094|5end_recombination_protein_1019236..1019466_POSITIVE 184 138 115 225 205 pint:PI0282|5end_hypothetical_protein_266540..266770_POSITIVE 183 83 47 64 32 pint:PI2096|5end_conserved_hypothetical_protein;_possible_phosphoesterase_2050268..2050498_POSITIVE 182 87 47 67 21 pint:PI2078|5end_hypothetical_protein_2036053..2036283_POSITIVE 181 50 8 180 138 pint:PI2031|5end_hypothetical_protein_1986053..1986283_POSITIVE 178 85 59 209 171 pint:PI1842|5end_conserved_hypothetical_protein_1787935..1788165_POSITIVE 177 87 45 208 174 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 177 105 63 99 64 pint:PI0640|5end_conserved_hypothetical_protein_583289..583519_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 235 45 19 96 71 pint:PI1904|3end_glutamine_synthetase_1847551..1847701_POSITIVE 227 88 62 31 1 pint:PI0179|3end_hypothetical_protein_171959..172109_POSITIVE 208 40 1 43 2 pint:PI1480|3end_xanthine/uracil_permease_family_protein_1404095..1404245_POSITIVE 205 83 46 112 77 pint:PI1132|3end_DnaJ_heat_shock_protein_(Hsp40)_1059668..1059818_POSITIVE 195 89 47 122 66 pint:PI0779|3end_predicted_TPR-repeat-containing_protein_715800..715950_POSITIVE 191 140 118 79 58 pint:PI1777|3end_conserved_hypothetical_protein_1710081..1710231_POSITIVE 191 119 73 50 6 pint:PI1562|3end_methyltransferase_1480449..1480599_POSITIVE 191 35 6 64 42 pint:PI1061|3end_conserved_hypothetical_protein_980073..980223_POSITIVE 191 138 103 113 69 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 188 63 25 62 23 pint:PI0992|3end_RNA_polymerase_sigma-70_factor_917222..917372_POSITIVE 185 85 52 125 81 pint:PI2078|3end_hypothetical_protein_2036783..2036933_POSITIVE 184 105 61 145 98 pint:PI1189|3end_conserved_hypothetical_protein_1108768..1108918_POSITIVE 184 89 47 69 25 pint:PI1093|3end_conserved_hypothetical_protein_1019196..1019346_POSITIVE 180 49 6 75 34 pint:PI1426|3end_flavodoxin_1345446..1345596_POSITIVE 178 87 62 66 36 pint:PI0760|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_695989..696139_POSITIVE 175 83 46 70 28 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 175 69 41 74 49 pint:PI0636|3end_hypothetical_protein_582213..582363_POSITIVE 173 94 55 143 104 pint:PI1804|3end_hypothetical_protein_1738290..1738440_POSITIVE 171 134 92 141 102 pint:PI0485|3end_30S_ribosomal_protein_S4_445135..445285_POSITIVE 170 136 91 132 72 pint:PI1675|3end_TonB-dependent_outer_membrane_receptor_1590535..1590685_POSITIVE